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B1KQD0

- DAPF_SHEWM

UniProt

B1KQD0 - DAPF_SHEWM

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Protein

Diaminopimelate epimerase

Gene
dapF, Swoo_0487
Organism
Shewanella woodyi (strain ATCC 51908 / MS32)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

Functioni

Catalyzes the stereoinversion of LL-2,6-diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso-DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan By similarity.UniRule annotation

Catalytic activityi

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei12 – 121Substrate By similarity
Binding sitei45 – 451Substrate By similarity
Binding sitei65 – 651Substrate By similarity
Active sitei74 – 741Proton donor/acceptor By similarity
Binding sitei162 – 1621Substrate By similarity
Sitei164 – 1641Important for catalytic activity By similarity
Binding sitei195 – 1951Substrate By similarity
Sitei213 – 2131Important for catalytic activity By similarity
Active sitei222 – 2221Proton donor/acceptor By similarity

GO - Molecular functioni

  1. diaminopimelate epimerase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. lysine biosynthetic process via diaminopimelate Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciSWOO392500:GI2C-504-MONOMER.
UniPathwayiUPA00034; UER00025.

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimerase (EC:5.1.1.7)
Short name:
DAP epimerase
Gene namesi
Name:dapF
Ordered Locus Names:Swoo_0487
OrganismiShewanella woodyi (strain ATCC 51908 / MS32)
Taxonomic identifieri392500 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
ProteomesiUP000002168: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 279279Diaminopimelate epimeraseUniRule annotationPRO_1000099267Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi74 ↔ 222UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi392500.Swoo_0487.

Structurei

3D structure databases

ProteinModelPortaliB1KQD0.
SMRiB1KQD0. Positions 2-277.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni9 – 102Substrate binding By similarity
Regioni74 – 763Substrate binding By similarity
Regioni213 – 2142Substrate binding By similarity
Regioni223 – 2242Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiLIVEPPY.
OrthoDBiEOG6ND0M5.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B1KQD0-1 [UniParc]FASTAAdd to Basket

« Hide

MIHFAKMHGL GNDFMVVDGV TQNVFFSPEQ IKRLADRNFG VGFDQLLLVE    50
PPYDPDLDFH YRIFNADGGE VEQCGNGARC FARFVRNKGL TNKHKIKVST 100
SNGKITLRLE RDGNVTVNMG VPVLDPSKIP FNAKRVEKTY LLQTSSSHAM 150
ETFLCGAISM GNPHCVLEVE DIEHAEVERI GALLTQNERF PKGVNVGFMQ 200
VIDAGHIKLR VYERGAAETL ACGTGACAAA AVGQLQGKLN KMVRVDLPGG 250
TLTINWEGEG NPLWMTGPAE HVYDGQIPQ 279
Length:279
Mass (Da):30,626
Last modified:April 29, 2008 - v1
Checksum:i2D865DEF34E6E969
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000961 Genomic DNA. Translation: ACA84785.1.
RefSeqiWP_012323134.1. NC_010506.1.
YP_001758880.1. NC_010506.1.

Genome annotation databases

EnsemblBacteriaiACA84785; ACA84785; Swoo_0487.
GeneIDi6114721.
KEGGiswd:Swoo_0487.
PATRICi23603223. VBISheWoo126588_0508.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000961 Genomic DNA. Translation: ACA84785.1 .
RefSeqi WP_012323134.1. NC_010506.1.
YP_001758880.1. NC_010506.1.

3D structure databases

ProteinModelPortali B1KQD0.
SMRi B1KQD0. Positions 2-277.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 392500.Swoo_0487.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACA84785 ; ACA84785 ; Swoo_0487 .
GeneIDi 6114721.
KEGGi swd:Swoo_0487.
PATRICi 23603223. VBISheWoo126588_0508.

Phylogenomic databases

eggNOGi COG0253.
HOGENOMi HOG000220466.
KOi K01778.
OMAi LIVEPPY.
OrthoDBi EOG6ND0M5.

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci SWOO392500:GI2C-504-MONOMER.

Family and domain databases

HAMAPi MF_00197. DAP_epimerase.
InterProi IPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view ]
PANTHERi PTHR31689. PTHR31689. 1 hit.
Pfami PF01678. DAP_epimerase. 2 hits.
[Graphical view ]
TIGRFAMsi TIGR00652. DapF. 1 hit.
PROSITEi PS01326. DAP_EPIMERASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51908 / MS32.

Entry informationi

Entry nameiDAPF_SHEWM
AccessioniPrimary (citable) accession number: B1KQD0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: April 29, 2008
Last modified: September 3, 2014
This is version 48 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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